DomClust Test

In Group Out Group
Set Options
-S / -d use similarity(not checked) or distance(checked) as a measure of relatedness
-c# cutoff score/distance [60]
-m# score/distance for missing relationships (m < c)
-mr# specify a missing score as a ratio to c (0 < mr < 1) [0.95]
-C# cutoff score for domain split (c ≤ C)
-V# alignment coverage for domain split (0 ≤ V ≤ 1)
-n# minimum # of organisms in clusters to be output [2]
-ne# minimum # of entries in clusters to be output [2]
-p# ratio of phylogenetic pattern overlap for tree cutting [0.5]
-H homology clustering (i.e. skip the tree cutting)
-ai# member overlap for absorbing adjacent small clusters (0 ≤ ai ≤ 1)
-ao# member overlap for merging adjacent clusters (0 ≤ ao ≤ ai)
out_format html   text  
output_type complete   phylopat   count